# bamtools

## Summary

+ **Module Name:** bamtools
+ **Support Level:** Primary Support
+ **Software Access Level:** Open Access
+ **Home Page:** [https://github.com/pezmaster31/bamtools](https://github.com/pezmaster31/bamtools)

## Software Description

BamTools provides both a programmer\'s API and an end-user\'s toolkit
for handling BAM files (SAMtools is a superior SAM/BAM toolkit).
## General Linux

To load this module for use in a Linux environment, you can run the command:

	module load bamtools

Depending on where you are working, there may be more than one version of bamtools available.
To see which modules are available for loading you can run:

	module avail bamtools
## Slurm Example


	#!/bin/bash
	#SBATCH --job-name="rfm_RunBamtoolsTest_job"
	#SBATCH --ntasks=1
	#SBATCH --ntasks-per-node=1
	#SBATCH --output=rfm_RunBamtoolsTest_job.out
	#SBATCH --error=rfm_RunBamtoolsTest_job.err
	#SBATCH --time=0:10:0
	#SBATCH -p msismall
	module load bamtools/20120608
	bamtools stats -in out.bam